{"id":"W4387910292","doi":"10.1016/j.isci.2023.108319","title":"Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus)","year":2023,"lang":"en","type":"article","venue":"iScience","topic":"Animal Virus Infections Studies","field":"Agricultural and Biological Sciences","cited_by":25,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; Dalhousie University; Public Health Agency of Canada; Ministry of Natural Resources and Forestry; Canadian Food Inspection Agency; University of Saskatchewan; Environment and Climate Change Canada; University of British Columbia; Sinai Health System; Sunnybrook Health Science Centre; University of Waterloo; Ministère des Ressources naturelles et des Forêts; University of Toronto","funders":"Government of Saskatchewan; Dalhousie University; Ministry of Agriculture - Saskatchewan; Public Health Agency; Natural Sciences and Engineering Research Council of Canada; bioMérieux; Canada Foundation for Innovation; Public Health Agency of Canada; Association of Medical Microbiology and Infectious Disease Canada; Canadian Institutes of Health Research; Sunnybrook Research Institute; Canadian Food Inspection Agency","keywords":"Odocoileus; Biology; Transcriptome; Innate immune system; Host (biology); Immune system; Gene; Virology; Genetics; Gene expression; Zoology","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002790608,0.00008889721,0.000127219,0.00006715406,0.0001681191,0.00003351467,0.0001266814,0.00004776259,0.00001792236],"category_scores_gemma":[0.00005178753,0.0000448744,0.00003353805,0.001095573,0.0001451835,0.0002834132,0.00007907632,0.00006655098,0.00002284592],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002973749,"about_ca_system_score_gemma":0.000006275283,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005954712,"about_ca_topic_score_gemma":0.004516874,"domain_scores_codex":[0.9992093,0.00003792396,0.0001819416,0.0002358608,0.0001161531,0.0002188597],"domain_scores_gemma":[0.999797,0.00004089841,0.00006273102,0.00004564181,0.00003397471,0.00001978732],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.000005480815,0.00001258853,0.2780412,0.000004534422,0.000001462162,7.726827e-7,0.000236616,0.000007192582,0.7147637,0.00004363042,0.00001927719,0.006863532],"study_design_scores_gemma":[0.00009766095,0.00007337562,0.9764351,0.0000211313,0.000004075159,0.000003610423,0.00006159161,0.0007405357,0.02135779,0.0001292724,0.0009818856,0.000093947],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998751,0.00006519505,0.00004929758,0.0004563071,0.0001618242,0.0001509383,0.0000319367,0.00007436084,0.0002591541],"genre_scores_gemma":[0.9995025,0.0002676197,0.00002311167,0.0000737069,0.00003965043,0.00001899726,0.000009409842,9.334217e-7,0.00006411334],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6983939,"threshold_uncertainty_score":0.2520522,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0312923256806355,"score_gpt":0.2463493512336188,"score_spread":0.2150570255529833,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}